BAC Information

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BAC

Clone NameMSMg01-392B18
ChromosomeY (Build37)
Map Location 2,783,545 - 2,783,956
singlet/doubletsinglet
Overlap genenone
Upstream geneVmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-392B18.T7 (MSMg01no392_b18.b1)MSMg01-392B18.TJ (MSMg01no392_b18.g1)
ACCAG493723AG493724
length771767
length of high quality
(start - end)
415 (162 - 576)423 (77 - 499)
definitionCHROMAT_FILE: MSMg01no392_b18.b1 PHD_FILE: MSMg01no392_b18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:36:32 2005CHROMAT_FILE: MSMg01no392_b18.g1 PHD_FILE: MSMg01no392_b18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:36:32 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTAAATTAACAAACACCGAATGGTTGAGAAGCACCTCACAAAT
GTTCAAAATCCTTAATCATCAAGGGGCAGAAAGTAAAAATAACCTCACAG
AGTCAGAATGGCTATGATATAAAACTCAGATGACAACATTTGCTGGTGGG
TATGTTGTGAAGTAGGAACACTCCTCCATTGCTTGTGGAATTGCAAGTTG
GTACTACCACTCTGGAAAGCAGTTTGGGGTTTCCTCAGAAAAGTGGTAAT
AGTTCTGCTGAAGATCCAGCAATAGTCCTCCTGGGCATATACCCAGAAGA
TATTCCAACTTGTAATAAGAATACATGCATCACTATGTTCATAGCATCCT
CATTTATAATAGCAAGAAGCTGAAAATAACCCTGATGCCCGTCTTCAGAG
GAATGAATACAGAAAATATAGTACATTTACATAATGAAATACTACATCAC
TATTAAAATCAATGAATTCATGAAATTCTTAGACAAATGGATGGATCTGG
ATGATATGTTCCTAAGTGAGATAACTCCATCCACAAAGACCACACATGAT
ATATACTCACATGATATATACTCACTCACTTTATCCTTAAAGCTCAGAAN
AAAAAGGTAAAATTTGCCAAACCCACTGAACTCAACAAGAAGGAAGACCC
AAGTGTGGATATGTCCCTTCCCTCCTGCACTGGCAACCAAAGACCCCTGG
AAAGAGTTACCGAGAAAAAGT
NGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTTGTGAGATGATGTCATCACAGAG
GGATTCAATGGGATAGAAAGAGAAAAGAGGGAACCAAACTCCCTTTCATA
ATTAAACCTTTTCTATAACAACATTATTAAATTATATTTATATGTAGGTC
ATATCCCTCCTGACCCATTCAATTTCTTCCAAATATATTCACACCTGGGG
ATTAATCTTCAGAAAATTATTTTGGGAAACACATGTGATTATTTCAACAT
CTATAGTAGTGTGGGGGCATTATTCTCCCTACGTCATGTACACTTAACAT
CTTTAGATACCTCCTTCCCTGTGATAGCCTTGCAGCTCACTGAGTGACAT
GTGCATTTGATGATAAATGATACACAAACATTGAAGCACCTTACCATATC
CTGTCACCCATATCATGTTCAACATAGCAAGAACCACATTTGAGTAGAAN
AATACAAATACATTTTATAGTGTCTTGAAGCTAAAATCCCCAAATTAATC
AAAATGTTNNATTGGACTCTGTTACTTTATAACCAGGGTTTTTAAGTGAA
CAAGTCGCAGGGCTTTTTCGTGGACCCTTTGCGCAGGTTTATAGAGGCCT
TTTTACATTTTCATTCTCCCCCCATCCTCCACTGTTATAAAACTCCCCCC
TGGGGGTTGGCTTACCTTCCAAAAAACCCCCATTTTTAAGGGCCTTATTA
AATTTAAATTTTCCACG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no392_b18.g1 MSMg01no392_b18.g1 CHROMAT_FILE:
MSMg01no392_b18.g1 PHD_FILE: MSMg01no392_b18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:36:32 2005
         (423 letters)



>mm_chrY_2783228_2784051
          Length = 824

 Score =  690 bits (357), Expect = 0.0
 Identities = 399/413 (96%), Gaps = 2/413 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttgtgagatgatgtcatcacagagggattcaatgggatagaaagagaaaagagggaacca 60
           |||||||||||||||||||||| ||||| ||||||| |||||||||||||||||||||||
Sbjct: 729 ttgtgagatgatgtcatcacagtgggatccaatgggctagaaagagaaaagagggaacca 670

                                                                       
Query: 61  aactccctttcataattaaaccttttctataacaacattattaaattatatttatatgta 120
           || ||||||||||||||||||||||||||||||| |||||||||||||| ||||||||||
Sbjct: 669 aa-tccctttcataattaaaccttttctataacagcattattaaattatttttatatgta 611

                                                                       
Query: 121 ggtcatatccctcctgacccattcaatttcttccaaatatattcacacctggggattaat 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 610 ggtcatatccctcctgacccattcaatttcttccaaatatattcacacctggggattaat 551

                                                                       
Query: 181 cttcagaaaattatttt-gggaaacacatgtgattatttcaacatctatagtagtgtggg 239
           ||||||||||||||||| |||||| |||||||||||||||||||||||||||||||||||
Sbjct: 550 cttcagaaaattattttggggaaagacatgtgattatttcaacatctatagtagtgtggg 491

                                                                       
Query: 240 ggcattattctccctacgtcatgtacacttaacatctttagatacctccttccctgtgat 299
           | ||||||||||||||| |||||||||||||| |||||||||||||||||||||||||||
Sbjct: 490 gccattattctccctacatcatgtacacttaagatctttagatacctccttccctgtgat 431

                                                                       
Query: 300 agccttgcagctcactgagtgacatgtgcatttgatgataaatgatacacaaacattgaa 359
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 430 agccttgcagctcactgaatgacatgtgcatttgatgataaatgatacacaaacattgaa 371

                                                                
Query: 360 gcaccttaccatatcctgtcacccatatcatgttcaacatagcaagaaccaca 412
           ||||||||||||||  |||||||||||||||||||||||||||||||||||||
Sbjct: 370 gcaccttaccatatgatgtcacccatatcatgttcaacatagcaagaaccaca 318


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 16
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 423
Length of database: 824
Length adjustment: 9
Effective length of query: 414
Effective length of database: 815
Effective search space:   337410
Effective search space used:   337410
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)